CESSHIV-1 DATABASE

Control Elements Secondary Structures of HIV-1 genome

General information on HIV-1 isolate

# 2341
Accession number FJ614919
Name 07LKD11_4145s1
SubtypeCRF02_AG
CountrySouth Korea (Ghana)
Sampling year 2007
PatientLKD

FJ614919 isolate has foldings of [Core poly(A) site] [123nt 3' terminus] [USE domain, TAR, polyA] [USE region] [227nt 3' terminus] [Complete poly(A) region] [USE, TAR, polyA] .

The region encompassing Complete poly(A) region

The primary sequence:

ctagccctca gatgctgcat ataagcagcc gcttctcgcc tgtactaggt ctctcttgct agaccagatt tgagcctagg agctctctga ctagcg-gaga acccactgct taagcctcaa taaagcttgc cttgagtgct taaagtagtg tgtgcccgtc tgttgtgtga ctctggtaa

The optimal secondary structure:


The suboptimal structures within ΔΔG ≤ 4 kcal/mole of the minimum free energy